PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Neem_11819_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

MYB_related

Protein Properties

Length: 429aa MW: 47899.6 Da PI: 9.677

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_11819_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	22.7	2.4e-07	108	149	4	46
S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE ++l d+++++ + + Ia +++ Rt +++k+r+++ Neem_11819_f_1 108 WTKEETDQLFDLCERFDLR-FIVIADRFPSSRTVEELKDRYYS 149 *****************.*******************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	5.2E-31	80	154	IPR032563	DAMP1, SANT/Myb-like domain
SuperFamily	SSF46689	1.39E-6	104	154	IPR009057	Homeodomain-like
SMART	SM00717	1.8E-6	104	153	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	4.4E-6	107	151	IPR009057	Homeodomain-like
CDD	cd11658	2.86E-19	108	150	No hit	No description
Pfam	PF05499	1.9E-6	298	360	IPR008468	DNA methyltransferase 1-associated 1

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0000812	Cellular Component	Swr1 complex
GO:0035267	Cellular Component	NuA4 histone acetyltransferase complex
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 429 aa Download sequence Send to blast
MDAKDILGLP KTQLPITQEK KSRPQKEPQR KPDGISREVY ALTGGLAPLM PSIDVSQLKK 60 RPPSDEKVRV VNGIPPTGDY SFAKYNKSVD VVKYTDEEYE KYLTDPMWTK EETDQLFDLC 120 ERFDLRFIVI ADRFPSSRTV EELKDRYYSV SRAILIARAP SPGDVSVHPL VKEPYNVAQE 180 VERKRALSMV LSQTKQQERK DAEVLAEAKR ITESRMAARA AEEPELPVAS NVGLESADRA 240 VVLGDTVSPS SNVQLPSAAI VPSTSIMDDS ASTLASLRML RVYLRTYALE QMVQAASSSA 300 GLRTIKRVEQ TLQDLGVNLK PRVPTKAVCA EHLELRKEIL TLLNLQKQLQ YKEAEGSSYR 360 DGSYIDMPGT PKRSQRAGEQ DRTFVPDSIS FGGERVGKRD QKRKGPGRLS EAPSSPAHKR 420 PRKMKASDL

Sequence ? help Back to Top

Protein Sequence Length: 429 aa Download sequence Send to blast

MDAKDILGLP KTQLPITQEK KSRPQKEPQR KPDGISREVY ALTGGLAPLM PSIDVSQLKK  60
RPPSDEKVRV VNGIPPTGDY SFAKYNKSVD VVKYTDEEYE KYLTDPMWTK EETDQLFDLC  120
ERFDLRFIVI ADRFPSSRTV EELKDRYYSV SRAILIARAP SPGDVSVHPL VKEPYNVAQE  180
VERKRALSMV LSQTKQQERK DAEVLAEAKR ITESRMAARA AEEPELPVAS NVGLESADRA  240
VVLGDTVSPS SNVQLPSAAI VPSTSIMDDS ASTLASLRML RVYLRTYALE QMVQAASSSA  300
GLRTIKRVEQ TLQDLGVNLK PRVPTKAVCA EHLELRKEIL TLLNLQKQLQ YKEAEGSSYR  360
DGSYIDMPGT PKRSQRAGEQ DRTFVPDSIS FGGERVGKRD QKRKGPGRLS EAPSSPAHKR  420
PRKMKASDL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	1e-21	79	159	4	88	DNA methyltransferase 1-associated protein 1
4iej_A	1e-21	79	159	4	88	DNA methyltransferase 1-associated protein 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histone H4 and H2A. {ECO:0000305\|Ref.5}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KC121546	2e-41	KC121546.2 Quercus suber DNA methyltransferase associated protein 1 (DMAP1) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006444556.1	0.0	SWR1-complex protein 4 isoform X1
Refseq	XP_006492372.1	0.0	SWR1-complex protein 4 isoform X1
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	V4U6K6	0.0	V4U6K6_9ROSI; Uncharacterized protein
STRING	XP_006492372.1	0.0	(Citrus sinensis)
STRING	XP_006444556.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8543	24	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47210.1	0.0	MYB_related family protein

Publications ? help Back to Top
Gómez-Zambrano Á, et al. Arabidopsis SWC4 Binds DNA and Recruits the SWR1 Complex to Modulate Histone H2A.Z Deposition at Key Regulatory Genes. Mol Plant, 2018. 11(6): p. 815-832 [PMID:29604400]